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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaaagaccaaatgattttaagagtataatttcattgaaaccggtattatctaggtttttatatgcactcattccctgtattatgtttgtgggtgttcagATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGATGCTCAAGGGCTGAGCCCTGAGATGAGGCAGCGTAGCACGGTTGGTGCGG

Basic information

species Vitis vinifera
transcript Vv01s0026g01590.t01
intron # 7
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|161720305|gb|FC071158.1|FC071158
EST:     CATTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAG                         ATAGCATACTCGGT
genomic: CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAGgtatcattat ... gggtgttcagATAGCATACTCGGT
EST: gi|22010530|gb|BQ795564.1|BQ795564
EST:     CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAG                         ATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
genomic: CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAGgtatcattat ... gggtgttcagATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
EST: gi|254917156|gb|GR905982.1|GR905982
EST:     CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAG                         ATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
genomic: CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAGgtatcattat ... gggtgttcagATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
EST: gi|110427355|gb|EC993791.1|EC993791
EST:     CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAG                         ATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
genomic: CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAGgtatcattat ... gggtgttcagATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
EST: gi|110379815|gb|EC945035.1|EC945035
EST:     CATTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAG                         ATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
genomic: CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAGgtatcattat ... gggtgttcagATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
EST: gi|71859761|gb|DT008816.1|DT008816
EST:     CATTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAG                         ATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT
genomic: CGTTTTGGAATCTTCTTCACATATCTCCTGTTCGGAATGCCTCTGGCAAGgtatcattat ... gggtgttcagATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatctaggtttttatatgcactcattccctgtattatgtttgtgggtgttcagATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGATGCTCAAGGGCTGAGCCCTGAGATGAGGCAGCGTAGCACGGTTGGTGCGG
          tttttatat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaaagaccaaatgattttaagagtataatttcattgaaaccggtattatctaggtttttatatgcactcattccctgtattatgtttgtgggtgttcagATAGCATACTCGGTGTGGGTTCAGATGGAAGAAGGTTGTGGTTACCAGGATGCTCAAGGGCTGAGCCCTGAGATGAGGCAGCGTAGCACGGTTGGTGCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - agaccaa
- - - - - - - - - - - - - - - - - -tgaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atatgca